I have the same issue too. All fine in 220.127.116.11.
If use Acrobat PDF Reader - than file looks normal, but if open with google chrome or foxit reader than some items are misplaced.
Windows 2008 R2 (64bit).
JDK 7u11 or JRockit-jdk1.6.0_37 (same effect)
How looks the same document in 18.104.22.168
If in oracle reports builder for report set white frame color instead of no line for EACH item than this issue can be solved.
So looks like this problem of formatting lies in transparant (no line) color.